PXD038846-1

PXD038846 is an original dataset announced via ProteomeXchange.

Title	Discovery of biomarkers for amyotrophic lateral sclerosis from human cerebrospinal fluid using mass spectrometry-based proteomics
Description	Amyotrophic lateral sclerosis (ALS) is progressive neurodegenerative diseases characterized by the relentless loss of upper and lower motor neurons, eventually leading to death. Critical to the mission of developing effective therapies for ALS is the discovery of biomarkers that can illuminate mechanisms of neurodegeneration, as well as that, can be used for diagnostic, prognostic, or pharmacodynamic value across the disease. Here, we merged unbiased discovery-based approaches and targeted quantitative comparative analyses to identify proteins that are altered in cerebrospinal fluid (CSF) from ALS. Mass spectrometry (MS)-based proteomic approaches employing tandem mass tags (TMT) quantification methods from 40 CSF samples comprising 20 patients with ALS and 20 healthy control (HC) individuals identified 53 candidate biomarker proteins after CSF fractionation. Notably, these candidate biomarkers included both previously identified proteins validating our approach and novel ones, expanding the applicability of the biomarkers. Candidate biomarkers were subsequently examined using parallel reaction monitoring (PRM) MS methods on 61 unfractionated CSF samples comprising 30 patients with ALS and 31 HC individuals. Fifteen candidate biomarkers (APOB, APP, CAMK2A, CHI3L1, CHIT1, CLSTN3, ERAP2, FSTL4, GPNMB, JCHAIN, L1CAM, NPTX2, SERPINA1, SERPINA3 and UCHL1) showed significant differences between ALS and Control. Taken together, this study identifies multiple novel proteins that are altered in ALS, which provides the foundation for developing biomarkers for ALS.
HostingRepository	PRIDE
AnnounceDate	2023-05-22
AnnouncementXML	Submission_2023-05-22_13:07:43.538.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	chanhyunna
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-12-14 22:04:56	ID requested
⏵ 1	2023-05-22 13:07:43	announced
2	2023-11-14 08:58:39	announced	2023-11-14: Updated project metadata.

submitter keyword: cerebrospinal fluid, proteomics, mass spectrometry,Amyotrophic lateral sclerosis, and biomarker

Chan-HyunNA
contact affiliation	Assistant Professor of Neurology Institute for Cell Engineering Johns Hopkins University School of Medicine
contact email	chanhyun@jhmi.edu
lab head
chanhyunna
contact affiliation	Johns Hopkins University
contact email	chanhyun.na@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD038846
     1. Label: PRIDE project
     2. Name: Discovery of biomarkers for amyotrophic lateral sclerosis from human cerebrospinal fluid using mass spectrometry-based proteomics